BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 042357
(455 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QFZ|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 22a
pdb|2QFZ|B Chain B, Crystal Structure Of Human Tbc1 Domain Family Member 22a
Length = 345
Score = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 98/364 (26%), Positives = 156/364 (42%), Gaps = 85/364 (23%)
Query: 85 GSRLVSVKEVIAADDKRSDLEYEKEINLEKLQRIADTGLPDGGGLRATAWKLLLGYLPSC 144
SRL K+++A + +LE+L+R++ +G+P +R WKLL GYLP+
Sbjct: 23 ASRLDKFKQLLAGPNT----------DLEELRRLSWSGIPKP--VRPMTWKLLSGYLPAN 70
Query: 145 RDLWEKELTENRQKYXXXXXXXXXRPSEITRIKDEVSNYNDQNADNDVDGPLRRQEISQE 204
D RP+ + R + E + + D+ R E+ Q+
Sbjct: 71 VD---------------------RRPATLQRKQKEYFAFIEHYYDS------RNDEVHQD 103
Query: 205 DHPLSSGKASVWHQYFQHIEIAEQIDRDLQRTHPDMKFFSGDAAFSRKNREAMRNILLLF 264
+ QI D+ R P+ K E IL ++
Sbjct: 104 TY--------------------RQIHIDIPRMSPEALILQP------KVTEIFERILFIW 137
Query: 265 AKLNPVIRYVQGMNEVLAPMYYVF-----------STDPDEQNAE---NAEADSFSCFVR 310
A +P YVQG+N+++ P + VF + D AE N EAD++ C +
Sbjct: 138 AIRHPASGYVQGINDLVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSK 197
Query: 311 LLSDSVDHFCQQLDNSSGGILSTLSHLAELLKANDEELWRHLEYTNEIKPQFYAFRWITL 370
LL D++ + GI + L EL+ DE++ RHL+ +E++ +AFRW+
Sbjct: 198 LLDGIQDNYT----FAQPGIQMKVKMLEELVSRIDEQVHRHLD-QHEVRYLQFAFRWMNN 252
Query: 371 LLTQEFNLQPILRIWDTLLSNPFGIQHMLLRVCCAMLLCMKNRLL-SGDFVANLQLLQHY 429
LL +E L+ +R+WDT S P G H L VC A L+ + +L DF L LQ+
Sbjct: 253 LLMREVPLRCTIRLWDTYQSEPDGFSHFHLYVCAAFLVRWRKEILEEKDFQELLLFLQNL 312
Query: 430 PDVN 433
P +
Sbjct: 313 PTAH 316
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 92/337 (27%), Positives = 149/337 (44%), Gaps = 73/337 (21%)
Query: 111 NLEKLQRIADTGLPDGGGLRATAWKLLLGYLPSCRDLWEKELTENRQKYXXXXXXXXXRP 170
+L++L++ + G+P +R W+LL GYLP+ TE R+
Sbjct: 40 DLDELRKCSWPGVPRE--VRPITWRLLSGYLPAN--------TERRK------------- 76
Query: 171 SEITRIKDEVSNYNDQNADNDVDGPLRRQEISQEDHPLSSGKASVWHQYFQHIEIAEQID 230
+ R ++E + +Q D+ E+H H + QI
Sbjct: 77 LTLQRKREEYFGFIEQYYDS-----------RNEEH---------------HQDTYRQIH 110
Query: 231 RDLQRTHPDMKFFSGDAAFSRKNREAMRNILLLFAKLNPVIRYVQGMNEVLAPMYYVFST 290
D+ RT+P + F +E IL ++A +P YVQG+N+++ P + VF +
Sbjct: 111 IDIPRTNPLIPLFQQPLV-----QEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFLS 165
Query: 291 DPDEQNAEN-------------AEADSFSCFVRLLSDSVDHFCQQLDNSSGGILSTLSHL 337
+ E++ EN EADSF C +LL D++ + GI + L
Sbjct: 166 EYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYT----FAQPGIQKKVKAL 221
Query: 338 AELLKANDEELWRHLEYTNEIKPQFYAFRWITLLLTQEFNLQPILRIWDTLLSNPFGIQH 397
EL+ DE++ H E++ +AFRW+ LL +E L+ +R+WDT S P G H
Sbjct: 222 EELVSRIDEQVHNHFR-RYEVEYLQFAFRWMNNLLMRELPLRCTIRLWDTYQSEPEGFSH 280
Query: 398 MLLRVCCAMLLCMKNRLL-SGDFVANLQLLQHYPDVN 433
L VC A L+ + +L DF L LLQ+ P ++
Sbjct: 281 FHLYVCAAFLIKWRKEILDEEDFQGLLMLLQNLPTIH 317
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 88/327 (26%), Positives = 147/327 (44%), Gaps = 83/327 (25%)
Query: 85 GSRLVSVKEVIAADDKRSDLEYEKEI-NLEKLQRIADTGLPDGGGLRATAWKLLLGYLPS 143
GS + + +I K ++ +K I N + L++I+ G+P R WKLL+GYLP
Sbjct: 15 GSDVQELNSIIQRISKFDNILKDKTIINQQDLRQISWNGIPKIH--RPVVWKLLIGYLPV 72
Query: 144 CRDLWEKELTENRQKYXXXXXXXXXRPSEITRIKDEVSN-YNDQNADNDVDGPLRRQEIS 202
E L R++Y +D + + ++DQ++
Sbjct: 73 NTKRQEGFLQRKRKEY-----------------RDSLKHTFSDQHS-------------- 101
Query: 203 QEDHPLSSGKASVWHQYFQHIEIAEQIDRDLQRTHPDMKFFSGDAAFSRKNREAMRNILL 262
D P WHQ I+ D+ RT+P + + + + +++ IL
Sbjct: 102 -RDIP-------TWHQ----------IEIDIPRTNPHIPLYQFKSV-----QNSLQRILY 138
Query: 263 LFAKLNPVIRYVQGMNEVLAPMYYVFST--------------DP-----DEQNAENAEAD 303
L+A +P YVQG+N+++ P + F T DP DEQ + EAD
Sbjct: 139 LWAIRHPASGYVQGINDLVTPFFETFLTEYLPPSQIDDVKIKDPSTYMVDEQ-ITDLEAD 197
Query: 304 SFSCFVRLLSDSVDHFCQQLDNSSGGILSTLSHLAELLKANDEELWRHLEYTNEIKPQFY 363
+F C +LL D++ + GIL + +L++L+K D +L+ H + + QF
Sbjct: 198 TFWCLTKLLEQITDNYI----HGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQF- 252
Query: 364 AFRWITLLLTQEFNLQPILRIWDTLLS 390
AFRW+ LL +EF + ++R+WDT LS
Sbjct: 253 AFRWMNCLLMREFQMGTVIRMWDTYLS 279
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 83/301 (27%), Positives = 133/301 (44%), Gaps = 82/301 (27%)
Query: 110 INLEKLQRIADTGLPDGGGLRATAWKLLLGYLPSCRDLWEKELTENRQKYXXXXXXXXXR 169
IN + L++I+ G+P R WKLL+GYLP E L R++Y
Sbjct: 21 INQQDLRQISWNGIPKIH--RPVVWKLLIGYLPVNTKRQEGFLQRKRKEY---------- 68
Query: 170 PSEITRIKDEVSN-YNDQNADNDVDGPLRRQEISQEDHPLSSGKASVWHQYFQHIEIAEQ 228
+D + + ++DQ++ D P WHQ
Sbjct: 69 -------RDSLKHTFSDQHS---------------RDIP-------TWHQ---------- 89
Query: 229 IDRDLQRTHPDMKFFSGDAAFSRKNREAMRNILLLFAKLNPVIRYVQGMNEVLAPMYYVF 288
I+ D+ RT+P + + + + +++ IL L+A +P YVQG+N+++ P + F
Sbjct: 90 IEIDIPRTNPHIPLYQFKSV-----QNSLQRILYLWAIRHPASGYVQGINDLVTPFFETF 144
Query: 289 ST--------------DP-----DEQNAENAEADSFSCFVRLLSDSVDHFCQQLDNSSGG 329
T DP DEQ + EAD+F C +LL D++ + G
Sbjct: 145 LTEYLPPSQIDDVEIKDPSTYXVDEQ-ITDLEADTFWCLTKLLEQITDNYI----HGQPG 199
Query: 330 ILSTLSHLAELLKANDEELWRHLEYTNEIKPQFYAFRWITLLLTQEFNLQPILRIWDTLL 389
IL + +L++L+K D +L+ H + + QF AFRW LL +EF ++R WDT L
Sbjct: 200 ILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQF-AFRWXNCLLXREFQXGTVIRXWDTYL 258
Query: 390 S 390
S
Sbjct: 259 S 259
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 83/205 (40%), Gaps = 21/205 (10%)
Query: 227 EQIDRDLQRTHPDMKFFSGDAAFSRKNREAMRNILLLFAKLNPVIRYVQGMNEVLAPMYY 286
E I D+ RT P++ F + + + +IL + P + YVQGM+ + A +
Sbjct: 111 ELIKLDISRTFPNLCIFQQGGPY----HDMLHSILGAYTCYRPDVGYVQGMSFIAAVLIL 166
Query: 287 VFSTDPDEQNAENAEADSFSCFVRLLSDSVDHFCQQLDNSSGGILSTLSHLAELLKANDE 346
T AD+F F LL+ ++D+ G +L+ + + N
Sbjct: 167 NLDT-----------ADAFIAFSNLLNKPCQMAFFRVDH--GLMLTYFAAFEVFFEENLP 213
Query: 347 ELWRHLEYTNEIKPQFYAFRWITLLLTQEFNLQPILRIWDTLLSNPFGIQHMLLRVCCAM 406
+L+ H + N + P Y WI L ++ L RIWD + + L R +
Sbjct: 214 KLFAHFK-KNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFCRDG---EEFLFRTALGI 269
Query: 407 LLCMKNRLLSGDFVANLQLLQHYPD 431
L ++ L DF+ Q L P+
Sbjct: 270 LKLFEDILTKMDFIHMAQFLTRLPE 294
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 66/158 (41%), Gaps = 17/158 (10%)
Query: 232 DLQRTHPDMKFFSGDAAFSRKNREAMRNILLLFAKLNPVIRYVQGMNEVLAPMYYVFSTD 291
DL RT P +FS + ++ N+L ++ L+ + Y QG++ V + S
Sbjct: 100 DLGRTFPTHPYFSVQLG---PGQLSLFNLLKAYSLLDKEVGYCQGISFVAGVLLLHMS-- 154
Query: 292 PDEQNAENAEADSFSCFVRLLSDSVDHFCQQLDNSSGGILSTLSHLAELLKANDEELWRH 351
E +F L+ D F +Q + + L+ LL +L+ H
Sbjct: 155 ---------EEQAFEMLKFLMYDL--GFRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNH 203
Query: 352 LEYTNEIKPQFYAFRWITLLLTQEFNLQPILRIWDTLL 389
LE NEI P YA W L +F+L + R++D +
Sbjct: 204 LE-ENEISPSLYAAPWFLTLFASQFSLGFVARVFDIIF 240
>pdb|3CLW|A Chain A, Crystal Structure Of Conserved Exported Protein From
Bacteroides Fragilis
pdb|3CLW|B Chain B, Crystal Structure Of Conserved Exported Protein From
Bacteroides Fragilis
pdb|3CLW|C Chain C, Crystal Structure Of Conserved Exported Protein From
Bacteroides Fragilis
pdb|3CLW|D Chain D, Crystal Structure Of Conserved Exported Protein From
Bacteroides Fragilis
pdb|3CLW|E Chain E, Crystal Structure Of Conserved Exported Protein From
Bacteroides Fragilis
pdb|3CLW|F Chain F, Crystal Structure Of Conserved Exported Protein From
Bacteroides Fragilis
Length = 507
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 39/105 (37%), Gaps = 20/105 (19%)
Query: 226 AEQIDRDLQRTH----PDMKF----FSGDAAFSRKNREAMRNILLLFAKLNPVIRYVQGM 277
A+++D RT PD K+ +G F + RE N L F P
Sbjct: 82 AKEVDNSWNRTECFLSPDGKYDFTKQAGQQWFMKAARERGMNNFLFFTNSAPYF------ 135
Query: 278 NEVLAPMYYVFSTDPDEQNAENAEADSFSCFVRLLSDSVDHFCQQ 322
M ST +Q+ N + D F F R L S HF +Q
Sbjct: 136 ------MTRSASTVSTDQDCINLQNDKFDDFARFLVKSAQHFREQ 174
>pdb|3TAW|A Chain A, Crystal Structure Of A Hypothetical Glycoside Hydrolase
(Bdi_3141) From Parabacteroides Distasonis Atcc 8503 At
1.70 A Resolution
Length = 356
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 36/88 (40%), Gaps = 6/88 (6%)
Query: 276 GMNEVLAPMYYVFSTDPDEQNAENAEADSFSCFVRLLSDSVDHFCQQLDNSSGGILSTLS 335
G+N V+ P+ F E + E+D+F+ + + + DNS+ GI S S
Sbjct: 22 GVNPVIKPLPTKFYCPXREDSVAWEESDTFNPAATIYDGKIVVXYRAEDNSAQGIGSRTS 81
Query: 336 HLAELLKANDEELWRHLEYTNEIKPQFY 363
L + + + + KP FY
Sbjct: 82 RLGYATSTD------GIHFERDTKPAFY 103
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,985,781
Number of Sequences: 62578
Number of extensions: 581420
Number of successful extensions: 1204
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1183
Number of HSP's gapped (non-prelim): 17
length of query: 455
length of database: 14,973,337
effective HSP length: 102
effective length of query: 353
effective length of database: 8,590,381
effective search space: 3032404493
effective search space used: 3032404493
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)